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TagCleaner is an application that is able to automatically detect and efficiently remove tag sequences from metagenomic datasets. It is easily configurable and provides a user-friendly interface.
pISTil (a Pipeline for Interaction Sequence Tag identification and analysis) is a collection of scripts, and programs - running on both Linux and MacOS X systems - for fast analysis of large yeast two-hybrid sequence datasets.
sd_clust is Expressed Sequence Tag (EST) clustering software. It produces clusters very similar to those produced by d2_cluster. The project is now being hosted on google and can be found here - http://code.google.com/p/sdclust/
A program to model HapMap haplotypes in genetic association studies using tag SNP genotypes. Please visit http://www.ucd.ie/genepi/hapmixmap for more details.
SaskSAGE is package designed to exploit SAGE data. Csage is employed to identify and match SAGE tags in a biologically meaningful manner. Tags are analyzed for significance using a Chi squared test for independence between TAG and treatment.
PartiGene is a pipeline tool for the analysis of expressed sequence tag datasets. It integrates sequence base calling, sequence clustering, consensus building, and annotation, and delivers a relational database accessible through a web interface.